mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-08-28 18:08:19 +08:00
John Chilton
b5dbfe5364
Dead option - nothing reads it, pause module always available regardless of setting. Add deprecation handler so existing configs don't error on upgrade. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
59 lines
1.4 KiB
Bash
Executable File
59 lines
1.4 KiB
Bash
Executable File
#!/bin/sh
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# Usage: ./run.sh <start|stop|restart>
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#
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#
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# Description: This script can be used to start or stop the galaxy
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# web application.
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cd "$(dirname "$0")"
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. ./scripts/common_startup_functions.sh
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# If there is a file that defines a shell environment specific to this
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# instance of Galaxy, source the file.
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if [ -z "$GALAXY_LOCAL_ENV_FILE" ];
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then
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GALAXY_LOCAL_ENV_FILE='./config/local_env.sh'
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fi
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if [ -f "$GALAXY_LOCAL_ENV_FILE" ];
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then
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. "$GALAXY_LOCAL_ENV_FILE"
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fi
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GALAXY_PID=${GALAXY_PID:-galaxy.pid}
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GALAXY_LOG=${GALAXY_LOG:-galaxy.log}
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PID_FILE=$GALAXY_PID
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LOG_FILE=$GALAXY_LOG
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parse_common_args $@
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run_common_start_up
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setup_python
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if [ ! -z "$GALAXY_RUN_WITH_TEST_TOOLS" ];
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then
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export GALAXY_CONFIG_OVERRIDE_TOOL_CONFIG_FILE="$(pwd)/test/functional/tools/sample_tool_conf.xml"
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export GALAXY_CONFIG_OVERRIDE_ENABLE_BETA_TOOL_FORMATS="true"
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export GALAXY_CONFIG_INTERACTIVETOOLS_ENABLE="true"
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export GALAXY_CONFIG_OVERRIDE_WEBHOOKS_DIR="test/functional/webhooks"
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export GALAXY_CONFIG_OVERRIDE_PANEL_VIEWS_DIR="$(pwd)/test/integration/panel_views_1/"
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fi
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set_galaxy_config_file_var
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if [ "$INITIALIZE_TOOL_DEPENDENCIES" -eq 1 ]; then
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# Install Conda environment if needed.
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python ./scripts/manage_tool_dependencies.py init_if_needed
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fi
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find_server "${GALAXY_CONFIG_FILE:-none}" galaxy
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echo "Executing: $run_server $server_args"
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# args are properly quoted so use eval
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eval GALAXY_ROOT_DIR="." $run_server $server_args
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